Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0002200

Physical Location & Seq

Genomic Coordinates Forward (+)

14542838 .. 14548086

Gene Structure 5249 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG084000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 933 bp

ATGAGCGGTTGGGTGCATCTTGGAGTCGGAATCTCAAAACTACAACTAAAATTCTCTCCAGGTTCCAATGGACGAATGACCACTATGGGTGTATATGTGCGTGATTTGCTACTTGGGCAGTACTACTTTGATACACTTTTCCCTCGCATACCTGTTCCTGTGTTGCGGCAGATTACAGCTAATCTTGAGAAGATGAAACTCCCAACAAAACTCTCTGGTGTTACTGGGGAGGCTACCCGTCATGGATCTGATGACACTGCCCGACGCCCACCTTCTGTGAAAGCGGCACTTTCAGTCTCCTTTGGTCAACGTGCCCCACACCGTGCTTCGACGAGGGACTCATCACCTGTTCGTCGAACTTTACCGCCACCGCCACCTTATGAAAAAGCTAGCACTGATGATTTACGGAGCCGTCGTAGCCAGAGCCGTGAGTATTCTGACAGAGACTATTCGGACAGGGACAGGGATAGGGGAAGGGACTGGGATCGGAATCGGGAAAGAGACAGGGATAGTGATCGTGATCGTGAACGAGAAAGGTACAAGGAACGGGAGAGGGGTCGAGATAGAGACAGATCAAGGGATAGAGAACGAAGTTCTGATTATGATAGGAGGTCAAGATATGCAGAGAGAGAAAGCCGGAGGGACTATTATGAGAGTAGCCGTGATGGTGGTAGACATTCCCGTAGGAGTAGGAGTCGAAGCCGCAGTAGAAGCAGGAGTAGGAGTCGGAGCTTGCAAGCTGGCACTGCTCATGTAAGCCCGCCGAGAGATGTAAACAAGGATAGAACATCTGTATCTAGCAATCTGGCAAAACTTAGGGATCTTTATGGTGATGTGAGTGTCCAAAAAGGGGATACTAGTATGGATAGGATTCCGAGGAGCGATAACGGTGCTGAAGAGGTGATTAGGCTTGGTGGTCACCGATGGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0010035 GO:0010038 GO:0010226 GO:0032991 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050896 GO:0071011 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP38 PRP38_assoc

Protein Analysis

310

Amino Acids

36.02

Weight (kDa)

10.85

Isoelectric Point (pI)

73.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP38_assoc	PF12871	79 - 168	3e-07	Pre-mRNA-splicing factor 38-associated hydrophilic C-term

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002200)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370
fragaria_vesca	FvH4_4g06670
malus_domestica	MD01G1153700.v1.1 MD13G1237000.v1.1 MD16G1242400.v1.1
prunus_persica	Prupe.1G069400_v2.0.a1
pyrus_communis	pycom13g20990 pycom16g20310
rosa_chinensis	RchiOBHm_Chr4g0398571 RchiOBHm_Chr7g0213101
rosa_laevigata	RLG00000009343 RLG00000029418
rosa_multiflora	Rmu_sc0000990.1_g000015 Rmu_sc0005217.1_g000008 Rmu_sc0037096.1_g000001 Rmu_sc0042611.1_g000001
rosa_roxburghii	Rroxscaffold_5G00343540
rosa_rugosa	Rorug04G0009400 Rorug04G0009400 Rorug04G0009400
rosa_samantha	Rh2CG542000 Rh2CG542400 Rh2DG581100 Rh2DG581300 Rh3CG285800 Rh4AG087400 Rh4BG084000 Rh4CG095600 Rh4DG078900 Rh5DG096400 Rh6BG299500
rosa_wichuraiana	Rw2G046220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	6
AccI	GTMKAC	1 cut(s)	673
AciI	CCGC	7 cut(s)	6, 166, 284, 365, 371, 703, 761
AclWI	GGATC	3 cut(s)	253, 492, 828
AcsI	RAATTY	1 cut(s)	50
AcuI	CTGAAG	1 cut(s)	915
AcyI	GRCGYC	1 cut(s)	265
AdeI	CACNNNGTG	1 cut(s)	323
AfaI	GTAC	2 cut(s)	122, 539
AfiI	CCNNNNNNNGG	1 cut(s)	850
AhlI	ACTAGT	1 cut(s)	857
AjnI	CCWGG	1 cut(s)	58
AluBI	AGCT	4 cut(s)	179, 389, 732, 740
AluI	AGCT	4 cut(s)	179, 389, 732, 740
Alw26I	GTCTC	4 cut(s)	301, 438, 495, 561
AlwI	GGATC	3 cut(s)	253, 492, 828
ApoI	RAATTY	1 cut(s)	50
AsuHPI	GGTGA	4 cut(s)	336, 842, 911, 913
AsuNHI	GCTAGC	1 cut(s)	389
BaeGI	GKGCMC	1 cut(s)	316
BaeI	ACNNNNGTAYC	2 cut(s)	777, 810
BccI	CCATC	2 cut(s)	659, 918
BceAI	ACGGC	3 cut(s)	396, 411, 645
BcgI	CGANNNNNNTGC	2 cut(s)	872, 906
BciT130I	CCWGG	1 cut(s)	60
BciVI	GTATCC	1 cut(s)	847
BcoDI	GTCTC	4 cut(s)	301, 438, 495, 561
BcuI	ACTAGT	1 cut(s)	857
BfaI	CTAG	3 cut(s)	390, 798, 858
BfuI	GTATCC	1 cut(s)	847
BisI	GCNGC	3 cut(s)	167, 285, 703
BlsI	GCNGC	3 cut(s)	168, 286, 704
BmcAI	AGTACT	1 cut(s)	122
Bme1390I	CCNGG	1 cut(s)	60
BmiI	GGNNCC	2 cut(s)	64, 410
BmrFI	CCNGG	1 cut(s)	60
BmrI	ACTGGG	2 cut(s)	234, 490
BmsI	GCATC	1 cut(s)	25
BmtI	GCTAGC	1 cut(s)	393
BmuI	ACTGGG	2 cut(s)	234, 490
BpmI	CTGGAG	1 cut(s)	42
BpuEI	CTTGAG	1 cut(s)	206
BsaBI	GATNNNNATC	3 cut(s)	489, 513, 519
BsaHI	GRCGYC	1 cut(s)	265
BsaJI	CCNNGG	1 cut(s)	875
BsaXI	ACNNNNNCTCC	6 cut(s)	400, 430, 679, 709, 709, 739
Bsc4I	CCNNNNNNNGG	1 cut(s)	850
Bse1I	ACTGG	2 cut(s)	229, 485
Bse8I	GATNNNNATC	3 cut(s)	489, 513, 519
BseBI	CCWGG	1 cut(s)	60
BseDI	CCNNGG	1 cut(s)	875
BseJI	GATNNNNATC	3 cut(s)	489, 513, 519
BseLI	CCNNNNNNNGG	1 cut(s)	850
BseNI	ACTGG	2 cut(s)	229, 485
BseRI	GAGGAG	1 cut(s)	892
BseSI	GKGCMC	1 cut(s)	316
BsiSI	CCGG	1 cut(s)	637
BslFI	GGGAC	4 cut(s)	350, 473, 491, 656
BslI	CCNNNNNNNGG	1 cut(s)	850
BsmAI	GTCTC	4 cut(s)	301, 438, 495, 561
BsmFI	GGGAC	4 cut(s)	350, 473, 491, 656
Bsp1286I	GDGCHC	1 cut(s)	316
Bsp143I	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
BspACI	CCGC	7 cut(s)	6, 166, 284, 365, 371, 703, 761
BspLI	GGNNCC	2 cut(s)	64, 410
BspOI	GCTAGC	1 cut(s)	393
BspPI	GGATC	3 cut(s)	253, 492, 828
BsrBI	CCGCTC	1 cut(s)	6
BsrI	ACTGG	2 cut(s)	229, 485
BssECI	CCNNGG	1 cut(s)	875
BssMI	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
BssNI	GRCGYC	1 cut(s)	265
Bst2UI	CCWGG	1 cut(s)	60
Bst4CI	ACNGT	2 cut(s)	323, 890
Bst6I	CTCTTC	1 cut(s)	891
BstACI	GRCGYC	1 cut(s)	265
BstC8I	GCNNGC	5 cut(s)	391, 734, 738, 742, 761
BstDEI	CTNAG	1 cut(s)	815
BstEII	GGTNACC	1 cut(s)	917
BstKTI	GATC	6 cut(s)	248, 487, 517, 523, 575, 823
BstMAI	GTCTC	4 cut(s)	301, 438, 495, 561
BstMBI	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
BstMWI	GCNNNNNNNGC	5 cut(s)	106, 115, 417, 711, 746
BstNI	CCWGG	1 cut(s)	60
BstPI	GGTNACC	1 cut(s)	917
BstSCI	CCNGG	1 cut(s)	58
BstSLI	GKGCMC	1 cut(s)	316
BstX2I	RGATCY	2 cut(s)	245, 820
BstYI	RGATCY	2 cut(s)	245, 820
BsuI	GTATCC	1 cut(s)	847
BtsI	GCAGTG	2 cut(s)	255, 744
BtsIMutI	CAGTG	3 cut(s)	255, 393, 744
Cac8I	GCNNGC	5 cut(s)	391, 734, 738, 742, 761
CseI	GACGC	1 cut(s)	273
Csp6I	GTAC	2 cut(s)	121, 538
CviAII	CATG	2 cut(s)	242, 752
CviQI	GTAC	2 cut(s)	121, 538
DdeI	CTNAG	1 cut(s)	815
DpnI	GATC	6 cut(s)	247, 486, 516, 522, 574, 822
DpnII	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
DraIII	CACNNNGTG	1 cut(s)	323
Eam1104I	CTCTTC	1 cut(s)	891
EarI	CTCTTC	1 cut(s)	891
Eco57I	CTGAAG	1 cut(s)	915
Eco91I	GGTNACC	1 cut(s)	917
EcoO65I	GGTNACC	1 cut(s)	917
EcoRII	CCWGG	1 cut(s)	58
FaeI	CATG	2 cut(s)	245, 755
FalI	AAGNNNNNCTT	2 cut(s)	273, 305
FaqI	GGGAC	4 cut(s)	350, 473, 491, 656
FatI	CATG	2 cut(s)	241, 751
FauI	CCCGC	1 cut(s)	768
FblI	GTMKAC	1 cut(s)	673
Fnu4HI	GCNGC	3 cut(s)	167, 285, 703
Fsp4HI	GCNGC	3 cut(s)	167, 285, 703
FspBI	CTAG	3 cut(s)	390, 798, 858
GluI	GCNGC	3 cut(s)	167, 285, 703
GsuI	CTGGAG	1 cut(s)	42
HapII	CCGG	1 cut(s)	637
HgaI	GACGC	1 cut(s)	273
Hin1I	GRCGYC	1 cut(s)	265
Hin1II	CATG	2 cut(s)	245, 755
HincII	GTYRAC	1 cut(s)	308
HindII	GTYRAC	1 cut(s)	308
HinfI	GANTC	7 cut(s)	24, 30, 338, 490, 694, 724, 871
HpaII	CCGG	1 cut(s)	637
HphI	GGTGA	4 cut(s)	336, 842, 911, 913
Hpy166II	GTNNAC	4 cut(s)	308, 527, 674, 775
Hpy188I	TCNGA	8 cut(s)	29, 250, 439, 454, 489, 598, 729, 876
Hpy188III	TCNNGA	6 cut(s)	185, 494, 518, 524, 560, 615
Hpy8I	GTNNAC	4 cut(s)	308, 527, 674, 775
Hpy99I	CGWCG	4 cut(s)	267, 334, 357, 417
HpyAV	CCTTC	2 cut(s)	282, 468
HpyCH4III	ACNGT	2 cut(s)	323, 890
HpyCH4IV	ACGT	1 cut(s)	310
HpyCH4V	TGCA	3 cut(s)	16, 623, 736
HpyF10VI	GCNNNNNNNGC	5 cut(s)	106, 115, 417, 711, 746
HpyF3I	CTNAG	1 cut(s)	815
HpySE526I	ACGT	1 cut(s)	310
Hsp92I	GRCGYC	1 cut(s)	265
Hsp92II	CATG	2 cut(s)	245, 755
Kzo9I	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
LmnI	GCTCC	3 cut(s)	408, 729, 879
LweI	GCATC	1 cut(s)	25
MaeI	CTAG	3 cut(s)	390, 798, 858
MaeII	ACGT	1 cut(s)	310
MaeIII	GTNAC	2 cut(s)	220, 917
MalI	GATC	6 cut(s)	247, 486, 516, 522, 574, 822
MbiI	CCGCTC	1 cut(s)	6
MboI	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
MboII	GAAGA	2 cut(s)	202, 908
MflI	RGATCY	2 cut(s)	245, 820
MhlI	GDGCHC	1 cut(s)	316
MluCI	AATT	1 cut(s)	50
MlyI	GAGTC	4 cut(s)	33, 332, 703, 733
MmeI	TCCRAC	2 cut(s)	7, 707
MnlI	CCTC	8 cut(s)	153, 223, 327, 546, 603, 633, 870, 892
MspI	CCGG	1 cut(s)	637
MspR9I	CCNGG	1 cut(s)	60
MvaI	CCWGG	1 cut(s)	60
MwoI	GCNNNNNNNGC	5 cut(s)	106, 115, 417, 711, 746
NdeII	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
NheI	GCTAGC	1 cut(s)	389
NlaIII	CATG	2 cut(s)	245, 755
NlaIV	GGNNCC	2 cut(s)	64, 410
NmeAIII	GCCGAG	1 cut(s)	789
NmuCI	GTSAC	1 cut(s)	917
PcsI	WCGNNNNNNNCGW	1 cut(s)	412
PfeI	GAWTC	3 cut(s)	30, 490, 871
PkrI	GCNGC	3 cut(s)	168, 286, 704
PleI	GAGTC	4 cut(s)	32, 332, 702, 732
PpsI	GAGTC	4 cut(s)	32, 332, 702, 732
Psp6I	CCWGG	1 cut(s)	58
PspEI	GGTNACC	1 cut(s)	917
PspGI	CCWGG	1 cut(s)	58
PspN4I	GGNNCC	2 cut(s)	64, 410
PsuI	RGATCY	2 cut(s)	245, 820
RsaI	GTAC	2 cut(s)	122, 539
RsaNI	GTAC	2 cut(s)	121, 538
SatI	GCNGC	3 cut(s)	167, 285, 703
Sau3AI	GATC	6 cut(s)	245, 484, 514, 520, 572, 820
ScaI	AGTACT	1 cut(s)	122
SchI	GAGTC	4 cut(s)	33, 332, 703, 733
ScrFI	CCNGG	1 cut(s)	60
SduI	GDGCHC	1 cut(s)	316
SfaNI	GCATC	1 cut(s)	25
SmlI	CTYRAG	1 cut(s)	185
SmoI	CTYRAG	1 cut(s)	185
SpeI	ACTAGT	1 cut(s)	857
Sse9I	AATT	1 cut(s)	50
SsiI	CCGC	7 cut(s)	6, 166, 284, 365, 371, 703, 761
SspMI	CTAG	3 cut(s)	390, 798, 858
StyD4I	CCNGG	1 cut(s)	58
TaaI	ACNGT	2 cut(s)	323, 890
TaiI	ACGT	1 cut(s)	313
TaqI	TCGA	4 cut(s)	329, 355, 559, 697
TasI	AATT	1 cut(s)	50
TatI	WGTACW	1 cut(s)	120
TauI	GCSGC	3 cut(s)	169, 287, 705
TfiI	GAWTC	3 cut(s)	30, 490, 871
TscAI	CASTG	3 cut(s)	262, 400, 751
TseFI	GTSAC	1 cut(s)	917
Tsp45I	GTSAC	1 cut(s)	917
TspDTI	ATGAA	2 cut(s)	209, 396
TspGWI	ACGGA	1 cut(s)	421
TspRI	CASTG	3 cut(s)	262, 400, 751
XapI	RAATTY	1 cut(s)	50
XmiI	GTMKAC	1 cut(s)	673
XspI	CTAG	3 cut(s)	390, 798, 858
ZrmI	AGTACT	1 cut(s)	122

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.